Zilong-Li / vcfpp
a C++ API of htslib to be easily integrated and safely used. More importantly, it can be callled seamlessly in R/Python/Julia etc.
☆23Updated last month
Alternatives and similar repositories for vcfpp:
Users that are interested in vcfpp are comparing it to the libraries listed below
- Structural variant (SV) analysis tools☆35Updated 6 months ago
- Immuological gene typing and annotation for genome assembly☆31Updated 2 months ago
- Phase reads, assemble haplotypes and detect SVs☆19Updated 4 years ago
- Genotyping of segregating mobile elements insertions☆19Updated 3 years ago
- novoBreak: local assembly for breakpoint detection in cancer genomes☆26Updated 6 years ago
- Tools to gather evidence for structural variation via breakpoint detection.☆19Updated last month
- v2.x of the microassembly based somatic variant caller☆14Updated 4 months ago
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Updated 2 years ago
- PopSTR - A Population based microsatellite genotyper☆32Updated last year
- Population-wide Deletion Calling☆35Updated 4 months ago
- Functions to compare a SV call sets against a truth set.☆28Updated 8 months ago
- Kmer based genotyper for short reads.☆23Updated 3 years ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated 8 months ago
- Method to optimally select samples for validation and resequencing☆27Updated 3 years ago
- add true-negative SVs from a population callset to a truth-set.☆15Updated 2 years ago
- ☆21Updated this week
- Prioritize structural variants based on CADD scores☆28Updated 4 years ago
- LongcallR is a small variant caller for single molecule long-read RNA-seq data☆42Updated 3 months ago
- Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation☆23Updated 5 years ago
- Haplotype phaser for next-generation sequencing data☆13Updated 3 years ago
- Samwell: a python package for using genomic files... well☆19Updated 2 years ago
- Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model☆27Updated last year
- URMAP ultra-fast read mapper☆38Updated 4 years ago
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆17Updated 4 years ago
- Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data☆18Updated last month
- CADD-SV – a framework to score the effect of structural variants☆14Updated last month
- Sample Contamination Estimate from VCF☆19Updated 2 months ago
- Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes☆27Updated 6 months ago
- Structural variant VCF annotation, duplicate removal and comparison☆29Updated last month
- toolkit to process gtf files☆16Updated 3 years ago